AFAIK, Markus thought he had made a significant improvement to the programming for this in OOTP11. The problems that still existed (or were made worse) didn't start to come to light until near the end of beta. He took a shot at fixing it, and it didn't work as well as he hoped. Whoever hasn't had that happen to them can certainly start throwing stones.
The programming has problems with PBs. It also has problems with errors that merely advance runners 90 feet (of which PBs are a subset). Hopefully, Markus can figure out a better solution for these.
Then there are the more obscure situations that grate on people who really know the rules. I am not one of those people, but I've learned a few things. I've posted examples of these for Markus, but I wouldn't be surprised if he decides to postpone doing any complex and time-consuming programming to deal with all of them.
My guess is the average SP in the game has maybe 1-3 improperly called ERs during a season (either in his favor or the other way). I personally think the impact on his stats aren't worth getting too worked up about. But others will disagree. Just my
